HIV pixel clustering and cell clustering, 1 pixel clustering dataset (10 passes), 5 replicates of cell clustering (SOM, Leiden for metaclustering, resolution=5)
Candace Liu
January 16, 2022
- First do pixel clustering, then do cell clustering using frequency of pixel clusters
- Gaussian blur sigma=2, k=20 (pixel metaclusters)
- For each pixel, divide each marker by total (each pixel sums to 1)
- SOM for cell clustering then Leiden for metaclustering
Rep 1
Heatmap of pixel metacluster x cell cluster
Heatmap of marker x cell cluster (integrated)
Heatmap of marker x cell cluster (weighted)
Rep 2
Heatmap of pixel metacluster x cell cluster
Heatmap of marker x cell cluster (integrated)
Heatmap of marker x cell cluster (weighted)
Rep 3
Heatmap of pixel metacluster x cell cluster
Heatmap of marker x cell cluster (integrated)
Heatmap of marker x cell cluster (weighted)
Rep 4
Heatmap of pixel metacluster x cell cluster
Heatmap of marker x cell cluster (integrated)
Heatmap of marker x cell cluster (weighted)
Rep 5
Heatmap of pixel metacluster x cell cluster
Heatmap of marker x cell cluster (integrated)
Heatmap of marker x cell cluster (weighted)
